Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	I	S	S	L	R	K	A	F	I	F	M	G	A	V	A	A	L	S	L	V	N	A	Q	S	A	L	A	A	N	E	S	A	K	D	M	T	C	Q	E	F	I	D	L	N	P	K	A	M	T	P	V	A	W	W	M	L	H	E
Secondary structure
SS confidence
Disorder		?	?																				?	?	?	?	?	?	?	?	?	?	?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.
Sequence		E	T	V	Y	K	G	G	D	T	V	T	L	N	E	T	D	L	T	Q	I	P	K	V	I	E	Y	C	K	K	N	P	Q	K	N	L	Y	T	F	K	N	Q	A	S	N	D	L	P	N
Secondary structure
SS confidence
Disorder				?																																										?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 2xuv chain B Region: 31 - 99 Aligned: 63 Modelled: 69 Confidence: 100.0% Identity: 90% PDB header:unknown function Chain: B: PDB Molecule:hdeb; PDBTitle: the structure of hdeb Phyre2 PDB 1dj8 chain A Region: 38 - 97 Aligned: 60 Modelled: 60 Confidence: 96.5% Identity: 18% Fold: Protein HNS-dependent expression A; HdeA Superfamily: Protein HNS-dependent expression A; HdeA Family: Protein HNS-dependent expression A; HdeA Phyre2 PDB 2dk8 chain A domain 1 Region: 83 - 93 Aligned: 11 Modelled: 11 Confidence: 29.9% Identity: 36% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: RPO3F domain-like Phyre2 PDB 1fs1 chain B domain 2 Region: 66 - 90 Aligned: 25 Modelled: 25 Confidence: 29.2% Identity: 32% Fold: POZ domain Superfamily: POZ domain Family: BTB/POZ domain Phyre2 PDB 1t3w chain A Region: 67 - 101 Aligned: 35 Modelled: 35 Confidence: 26.3% Identity: 9% Fold: DNA primase DnaG, C-terminal domain Superfamily: DNA primase DnaG, C-terminal domain Family: DNA primase DnaG, C-terminal domain Phyre2 PDB 2ezw chain A domain 1 Region: 68 - 100 Aligned: 33 Modelled: 33 Confidence: 19.6% Identity: 9% Fold: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Phyre2 PDB 2pi2 chain E domain 1 Region: 43 - 92 Aligned: 50 Modelled: 50 Confidence: 18.4% Identity: 14% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 3kwr chain A Region: 46 - 67 Aligned: 22 Modelled: 22 Confidence: 17.1% Identity: 18% PDB header:rna binding protein Chain: A: PDB Molecule:putative rna-binding protein; PDBTitle: crystal structure of putative rna-binding protein (np_785364.1) from2 lactobacillus plantarum at 1.45 a resolution Phyre2 PDB 2pqa chain B Region: 43 - 92 Aligned: 50 Modelled: 50 Confidence: 16.5% Identity: 14% PDB header:replication Chain: B: PDB Molecule:replication protein a 14 kda subunit; PDBTitle: crystal structure of full-length human rpa 14/32 heterodimer Phyre2 PDB 1nex chain A domain 2 Region: 70 - 90 Aligned: 21 Modelled: 20 Confidence: 16.3% Identity: 19% Fold: POZ domain Superfamily: POZ domain Family: BTB/POZ domain Phyre2 PDB 1hv2 chain A Region: 60 - 90 Aligned: 31 Modelled: 31 Confidence: 12.9% Identity: 23% Fold: POZ domain Superfamily: POZ domain Family: BTB/POZ domain Phyre2 PDB 2dad chain A Region: 55 - 74 Aligned: 20 Modelled: 20 Confidence: 12.8% Identity: 20% PDB header:oncoprotein Chain: A: PDB Molecule:absent in melanoma 1 protein; PDBTitle: solution structure of the fifth crystall domain of the non-2 lens protein, absent in melanoma 1 Phyre2 PDB 3iuw chain A Region: 55 - 74 Aligned: 20 Modelled: 20 Confidence: 12.1% Identity: 20% PDB header:rna binding protein Chain: A: PDB Molecule:activating signal cointegrator; PDBTitle: crystal structure of activating signal cointegrator (np_814290.1) from2 enterococcus faecalis v583 at 1.58 a resolution Phyre2 PDB 2kdd chain B Region: 33 - 50 Aligned: 18 Modelled: 18 Confidence: 10.7% Identity: 28% PDB header:cell cycle Chain: B: PDB Molecule:borealin; PDBTitle: solution structure of the conserved c-terminal dimerization2 domain of borealin Phyre2 PDB 1vqo chain Q domain 1 Region: 62 - 71 Aligned: 10 Modelled: 10 Confidence: 9.2% Identity: 20% Fold: SH3-like barrel Superfamily: Translation proteins SH3-like domain Family: Ribosomal proteins L24p and L21e Phyre2 PDB 3iz6 chain M Region: 53 - 77 Aligned: 25 Modelled: 25 Confidence: 9.1% Identity: 24% PDB header:ribosome Chain: M: PDB Molecule:40s ribosomal protein s18 (s13p); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 1bc9 chain A Region: 13 - 46 Aligned: 34 Modelled: 34 Confidence: 8.7% Identity: 18% Fold: alpha-alpha superhelix Superfamily: Sec7 domain Family: Sec7 domain Phyre2 PDB 3dkq chain B Region: 54 - 70 Aligned: 17 Modelled: 17 Confidence: 8.7% Identity: 41% PDB header:oxidoreductase Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634; PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution Phyre2 PDB 1zir chain A domain 2 Region: 56 - 74 Aligned: 19 Modelled: 19 Confidence: 8.6% Identity: 32% Fold: gamma-Crystallin-like Superfamily: gamma-Crystallin-like Family: Crystallins/Ca-binding development proteins Phyre2 PDB 3kny chain A Region: 56 - 75 Aligned: 20 Modelled: 20 Confidence: 8.5% Identity: 20% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein bt_3535; PDBTitle: crystal structure of a two domain protein with unknown function2 (bt_3535) from bacteroides thetaiotaomicron vpi-5482 at 2.60 a3 resolution Phyre2 1 c2xuvB_ 2 d1dj8a_ 3 d2dk8a1 4 d1fs1b2 5 d1t3wa_ 6 d2ezwa1 7 d2pi2e1 8 c3kwrA_ 9 c2pqaB_ 10 d1nexa2 11 d1hv2a_ 12 c2dadA_ 13 c3iuwA_ 14 c2kddB_ 15 d1vqoq1 16 c3iz6M_ 17 d1bc9a_ 18 c3dkqB_ 19 d1zira2 20 c3knyA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c2xuvB_ 100.0 90 PDB header:unknown function Chain: B: PDB Molecule:hdeb; PDBTitle: the structure of hdeb 2 d1dj8a_ 96.5 18 Fold:Protein HNS-dependent expression A; HdeA Superfamily:Protein HNS-dependent expression A; HdeA Family:Protein HNS-dependent expression A; HdeA 3 d2dk8a1 29.9 36 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RPO3F domain-like 4 d1fs1b2 29.2 32 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 5 d1t3wa_ 26.3 9 Fold:DNA primase DnaG, C-terminal domain Superfamily:DNA primase DnaG, C-terminal domain Family:DNA primase DnaG, C-terminal domain 6 d2ezwa1 19.6 9 Fold:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 7 d2pi2e1 18.4 14 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 8 c3kwrA_ 17.1 18 PDB header:rna binding protein Chain: A: PDB Molecule:putative rna-binding protein; PDBTitle: crystal structure of putative rna-binding protein (np_785364.1) from2 lactobacillus plantarum at 1.45 a resolution 9 c2pqaB_ 16.5 14 PDB header:replication Chain: B: PDB Molecule:replication protein a 14 kda subunit; PDBTitle: crystal structure of full-length human rpa 14/32 heterodimer 10 d1nexa2 16.3 19 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 11 d1hv2a_ 12.9 23 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 12 c2dadA_ 12.8 20 PDB header:oncoprotein Chain: A: PDB Molecule:absent in melanoma 1 protein; PDBTitle: solution structure of the fifth crystall domain of the non-2 lens protein, absent in melanoma 1 13 c3iuwA_ 12.1 20 PDB header:rna binding protein Chain: A: PDB Molecule:activating signal cointegrator; PDBTitle: crystal structure of activating signal cointegrator (np_814290.1) from2 enterococcus faecalis v583 at 1.58 a resolution 14 c2kddB_ 10.7 28 PDB header:cell cycle Chain: B: PDB Molecule:borealin; PDBTitle: solution structure of the conserved c-terminal dimerization2 domain of borealin 15 d1vqoq1 9.2 20 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:Ribosomal proteins L24p and L21e 16 c3iz6M_ 9.1 24 PDB header:ribosome Chain: M: PDB Molecule:40s ribosomal protein s18 (s13p); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 17 d1bc9a_ 8.7 18 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 18 c3dkqB_ 8.7 41 PDB header:oxidoreductase Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634; PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution 19 d1zira2 8.6 32 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 20 c3knyA_ 8.5 20 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein bt_3535; PDBTitle: crystal structure of a two domain protein with unknown function2 (bt_3535) from bacteroides thetaiotaomicron vpi-5482 at 2.60 a3 resolution 21 c2zkrq_ not modelled 8.5 50 PDB header:ribosomal protein/rna Chain: Q: PDB Molecule:rna expansion segment es31 part ii; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 22 d1elpa1 not modelled 8.3 37 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 23 d2b50a1 not modelled 8.2 14 Fold:Nuclear receptor ligand-binding domain Superfamily:Nuclear receptor ligand-binding domain Family:Nuclear receptor ligand-binding domain 24 c2ovqA_ not modelled 8.2 32 PDB header:transcription/cell cycle Chain: A: PDB Molecule:s-phase kinase-associated protein 1a; PDBTitle: structure of the skp1-fbw7-cyclinedegc complex 25 c1s1iQ_ not modelled 7.9 60 PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l21-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 26 d2c9wc1 not modelled 7.8 24 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 27 c3drzE_ not modelled 7.3 25 PDB header:unknown function Chain: E: PDB Molecule:btb/poz domain-containing protein kctd5; PDBTitle: x-ray crystal structure of the n-terminal btb domain of human kctd52 protein 28 c2hdeA_ not modelled 7.1 17 PDB header:transcription Chain: A: PDB Molecule:histone deacetylase complex subunit sap18; PDBTitle: solution structure of human sap18 29 c2vx6A_ not modelled 6.9 16 PDB header:hydrolase Chain: A: PDB Molecule:cellvibrio japonicus mannanase cjman26c; PDBTitle: cellvibrio japonicus mannanase cjman26c gal1man4-bound form 30 c2dbiA_ not modelled 6.5 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ybiu; PDBTitle: crystal structure of a hypothetical protein jw0805 from2 escherichia coli 31 c3g36D_ not modelled 6.4 10 PDB header:nuclear protein Chain: D: PDB Molecule:protein dpy-30 homolog; PDBTitle: crystal structure of the human dpy-30-like c-terminal domain 32 d1qcsa1 not modelled 6.3 36 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Cdc48 N-terminal domain-like 33 c1wd6B_ not modelled 6.3 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ydhr; PDBTitle: crystal structure of jw1657 from escherichia coli 34 d2eyqa1 not modelled 6.2 22 Fold:SH3-like barrel Superfamily:CarD-like Family:CarD-like 35 d2csga1 not modelled 6.0 27 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:YbiU-like 36 c4a1aP_ not modelled 5.9 50 PDB header:ribosome Chain: P: PDB Molecule:60s ribosomal protein l21; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 3. 37 c1okiB_ not modelled 5.8 26 PDB header:eye lens protein Chain: B: PDB Molecule:beta crystallin b1; PDBTitle: crystal structure of truncated human beta-b1-crystallin 38 c2ddxA_ not modelled 5.7 22 PDB header:hydrolase Chain: A: PDB Molecule:beta-1,3-xylanase; PDBTitle: crystal structure of beta-1,3-xylanase from vibrio sp. ax-4 39 c3gf8A_ not modelled 5.7 36 PDB header:carbohydrate binding protein Chain: A: PDB Molecule:putative polysaccharide binding proteins (duf1812); PDBTitle: crystal structure of putative polysaccharide binding proteins2 (duf1812) (np_809975.1) from bacteroides thetaiotaomicron vpi-5482 at3 2.20 a resolution 40 c2bv2B_ not modelled 5.7 16 PDB header:crystallin Chain: B: PDB Molecule:ciona betagamma-crystallin; PDBTitle: beta gamma crystallin from ciona intestinalis 41 d1nhya2 not modelled 5.7 21 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione S-transferase (GST), N-terminal domain 42 d1vj1a1 not modelled 5.5 17 Fold:GroES-like Superfamily:GroES-like Family:Alcohol dehydrogenase-like, N-terminal domain 43 c3ogiC_ not modelled 5.5 100 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:putative esat-6-like protein 6; PDBTitle: crystal structure of the mycobacterium tuberculosis h37rv esxop2 complex (rv2346c-rv2347c) 44 d1okia1 not modelled 5.5 26 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 45 c3izcU_ not modelled 5.4 60 PDB header:ribosome Chain: U: PDB Molecule:60s ribosomal protein rpl21 (l21e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 46 d1pbva_ not modelled 5.3 12 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 47 c2zkqm_ not modelled 5.3 23 PDB header:ribosomal protein/rna Chain: M: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 48 d2hiqa1 not modelled 5.2 25 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Hypothetical protein YdhR 49 d1pvda3 not modelled 5.1 24 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Pyruvate oxidase and decarboxylase PP module 50 c2oaxC_ not modelled 5.1 33 PDB header:transcription Chain: C: PDB Molecule:mineralocorticoid receptor; PDBTitle: crystal structure of the s810l mutant mineralocorticoid2 receptor associated with sc9420

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0